dti (version 1.2-0.1)

dti-package: Analysis of diffusion weighted imaging (DWI) data

Description

Diffusion Weighted Imaging (DWI) is a Magnetic Resonance Imaging modality, that measures diffusion of water in tissues like the human brain. The package contains R-functions to process diffusion-weighted data. The functionality includes diffusion tensor imaging (DTI), diffusion kurtosis imaging (DKI), modeling for high angular resolution diffusion weighted imaging (HARDI) using Q-ball-reconstruction and tensor mixture models, several methods for structural adaptive smoothing including POAS and msPOAS, and a streamline fiber tracking for tensor and tensor mixture models. The package provides functionality to manipulate and visualize results in 2D and 3D.

Details

ll{ Package: dti Version: 1.1-7 Date: 2013-11-21 Authors@R: c(person("Karsten", "Tabelow", role = c("aut", "cre"), email = "[e-mail]"), person("Joerg", "Polzehl", role = c("aut"), email = "[e-mail]"), person("Felix", "Anker", role = c("ctb"))) Depends: R (>= 2.14.0), awsMethods (>= 1.0-1) Imports: methods, parallel, oro.nifti (>= 0.3.9), oro.dicom, adimpro, gsl, rgl Suggests: quadprog LazyData: TRUE License: GPL (>= 2) Copyright: This package is Copyright (C) 2005-2013 Weierstrass Institute for Applied Analysis and Stochastics. URL: http://www.wias-berlin.de/projects/matheon_a3 Built: R 3.0.2; x86_64-unknown-linux-gnu; 2013-11-25 15:38:06 UTC; unix }

Index: awssigmc Estimate noise variance for multicoil MR systems colqFA FA map color scheme combineDWIdata Combine two objects of class "dtiData") dkiTensor-methods Diffusion Kurtosis Imaging (DKI) dti-package DTI Analysis dti.smooth-methods Methods for Function 'dti.smooth' in Package 'dti' dtiIndices-methods Methods for Function 'dtiIndices' in Package 'dti' dtiTensor-methods Methods for Function 'dtiTensor' in Package 'dti' dwi-class Class "dwi" dwi.smooth-methods Smooth DWI data dwiMixtensor-methods Methods for Function 'dwiMixtensor' in Package 'dti' dwiQball-methods Methods for Function 'dwiQball' in Package 'dti' dwiRiceBias-methods Correction for Rician Bias dwiSqrtODF-methods Methods for positive definite EAP and ODF estimation in Package 'dti' extract-methods Methods for Function 'extract' and '[' in Package 'dti' getmask-methods Methods for Function 'getmask' in Package 'dti' getsdofsb-methods Estimate the noise standard deviation medinria Read/Write Diffusion Tensor Data from/to NIFTI File optgrad Optimal gradient directions optgradients Optimal gradient directions for number of gradients between 6 and 162 plot-methods Methods for Function 'plot' in Package 'dti' pmatrix Parallelize columnwise computations on a matrix using forking (generalizes function 'pvec' from package 'parallel') polyeder Polyeders derived from the Icosahedron (icosa0) by sequential triangulation of surface triangles print-methods Methods for Function 'print' in Package 'dti' readDWIdata Read Diffusion Weighted Data sdpar-methods Methods for Function 'sdpar' in Package 'dti' show-methods Methods for Function 'show' in Package 'dti' show3d-methods Methods for Function 'show3d' in Package 'dti' showFAColorScale Writes an image with the colqFA colorscale to disk. subsetg Create an objects of class "dtiData" containing only a subset of gradient directions. summary-methods Methods for Function 'summary' in Package 'dti' tracking-methods Methods for Function 'tracking' in Package 'dti'

References

S. Becker, K. Tabelow, H.U. Voss, A. Anwander, R.M. Heidemann and J. Polzehl, Position-orientation adaptive smoothing of diffusion weighted magnetic resonance data (POAS), Medical Image Analysis, 16 (2012), pp. 1142-1155.

J. Polzehl and K. Tabelow, Beyond the diffusion tensor model: The package dti, Journal of Statistical Software, 44 no. 12 (2011) pp. 1-26.

K. Tabelow, H.U. Voss and J. Polzehl, Modeling the orientation distribution function by mixtures of angular central Gaussian distributions, Journal of Neuroscience Methods, 203 (2012), pp. 200-211.

J. Polzehl and K. Tabelow, Structural adaptive smoothing in diffusion tensor imaging: The R package dti, Journal of Statistical Software, 31 (2009) pp. 1--24. K. Tabelow, J. Polzehl, V. Spokoiny and H.U. Voss. Diffusion Tensor Imaging: Structural adaptive smoothing, NeuroImage 39(4), 1763-1773 (2008).

http://www.wias-berlin.de/projects/matheon_a3/

Examples

demo(dti_art)
  demo(mixtens_art)